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mmu_circPpp1r12b_499
Basic information of circular RNA
PanCircBase ID:
mmu_circPpp1r12b_499
mm39_Chr. Position ID:
chr1|134818493|134824199|-
Gene name:
Ppp1r12b
Transcript:
ENSMUST00000045665.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,5,4,3
Exon/intron offsets:
0,1402,2594,5587
Genomic length:
5706
Exon/intron sizes in nt:
75,14,51,60,119
Flanking exon/introns:
chr1:134815092-134818493|chr1:134824199-134830115
Splice length:
499
Other database IDs:
circBase: hsa_circ_0015982, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_357089
Human Ortholog IDs:
Mature spliced Sequence:
GTATTTTATTAGCCATGGAGCCAGTGTGGGTATTGTGAACAGTGAAGGTGAAGTTCCTTCTGACCTTGCAGAGGAGCCAGCCATGAAAGACCTTCTTCTGGAACAAGTAAAGAAACAAGGCGTTGATCTAGAGCAGTCAAGGAAGGAGGAAGAACAGCAGATGTTGCAGGATGCCCGCCAGTGGCTCAACAGCGGAAGAATAGAAGATGTGAGGCAGGCTCGCTCAGGGGCCACTGCCCTGCATGTAGCTGCTGCCAAGGGTTACTCTGAAGTCCTCAGGCTTCTCATTCAGGCTGGCTATGAACTCAATGTTCAGGATCATGACGGCTGGACTCCTCTTCATGCAGCTGCACACTGGGGAGTAAAAGAGGCTTGCTCCATCCTGGCAGAAGCACTCTGTGACATGGATATCCGGAACAAACTGGGCCAGACGCCATTTGATGTGGCTGATGAAGGTCTCGTGGAGCACTTGGAGATGCTTCAGAAGAAGCAAGATGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGGTCTCGTGGAGCACTTG
59.97
AGGTCTTTCATGGCTGGCTC
60.03
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TATCCGGAACAAACTGGGCC
60.03
TTTCATGGCTGGCTCCTCTG
60.03
179
PCR template sequence:
TGACATGGATATCCGGAACAAACTGGGCCAGACGCCATTTGATGTGGCTGATGAAGGTCTCGTGGAGCACTTGGAGATGCTTCAGAAGAAGCAAGATGTGGTATTTTATTAGCCATGGAGCCAGTGTGGGTATTGTGAACAGTGAAGGTGAAGTTCCTTCTGACCTTGCAGAGGAGCCAGCCATGAAAGACCTTCTTCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-149-5p(2), mmu-miR-199a-5p(1), mmu-miR-34a-5p(1), mmu-miR-222-3p(1), mmu-miR-125b-5p(1), mmu-miR-351-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAGCAAGATGTGGTATTTTATTAGC
siRNA sets
TAAAATACCACATCTTGCT, AATAAAATACCACATCTTG, ATAAAATACCACATCTTGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPPP1R12B_499_ORF_1
1.1964
0.24681677
0.880195795
558
ORF sequence:
ATGTGGCTGATGAAGGTCTCGTGGAGCACTTGGAGATGCTTCAGAAGAAGCAAGATGTGGTATTTTATTAGCCATGGAGCCAGTGTGGGTATTGTGAACAGTGAAGGTGAAGTTCCTTCTGACCTTGCAGAGGAGCCAGCCATGAAAGACCTTCTTCTGGAACAAGTAAAGAAACAAGGCGTTGATCTAGAGCAGTCAAGGAAGGAGGAAGAACAGCAGATGTTGCAGGATGCCCGCCAGTGGCTCAACAGCGGAAGAATAGAAGATGTGAGGCAGGCTCGCTCAGGGGCCACTGCCCTGCATGTAGCTGCTGCCAAGGGTTACTCTGAAGTCCTCAGGCTTCTCATTCAGGCTGGCTATGAACTCAATGTTCAGGATCATGACGGCTGGACTCCTCTTCATGCAGCTGCACACTGGGGAGTAAAAGAGGCTTGCTCCATCCTGGCAGAAGCACTCTGTGACATGGATATCCGGAACAAACTGGGCCAGACGCCATTTGATGTGGCTGATGAAGGTCTCGTGGAGCACTTGGAGATGCTTCAGAAGAAGCAAGATGTG
Peptide sequence:
MWLMKVSWSTWRCFRRSKMWYFISHGASVGIVNSEGEVPSDLAEEPAMKDLLLEQVKKQGVDLEQSRKEEEQQMLQDARQWLNSGRIEDVRQARSGATALHVAAAKGYSEVLRLLIQAGYELNVQDHDGWTPLHAAAHWGVKEACSILAEALCDMDIRNKLGQTPFDVADEGLVEHLEMLQKKQDV
IRESfinder result
IRESfinder score
0.3215493
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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